Fastgwa使用
http://www.downxia.com/downinfo/306967.html WebHere, we develop an MLM-based tool (fastGWA) that controls for population stratification by principal components and for relatedness by a sparse genetic relationship matrix for GWA analyses of biobank-scale data. We demonstrate by extensive simulations that fastGWA …
Fastgwa使用
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WebMixed linear model (MLM)-based approaches can be used to account for sample structure. However, genome-wide association (GWA) analyses in biobank samples such as the UK Biobank (UKB) often exceed the capability of most existing MLM-based tools especially if the number of traits is large. Here, we develop an MLM-based tool (fastGWA) that ... WebSep 23, 2024 · The evaluation suggests that REGENIE might not be a good choice when analyzing correlated data of a small size. fastGWA-GLMM is the most computationally efficient compared to the other three tools, but it appears to be overly conservative when applied to family-based data. GENESIS, SAIGE and fastGWA-GLMM produced similar, …
WebIn the present study, leveraging efficient sparse matrix-based algorithms, we developed a GLMM-based GWA tool, fastGWA-GLMM, that is severalfold to orders of magnitude faster than the state-of-the-art tools when applied to the UK Biobank (UKB) data and scalable to cohorts with millions of individuals. We show by simulation that the fastGWA-GLMM ... WebJun 3, 2024 · Genome-wide Complex Trait Analysis (GCTA) version 1.21. (C) 2010 Jian Yang, Hong Lee, Michael Goddard and Peter Visscher. The University of Queensland.
WebJan 11, 2024 · 图1 fastGWA-GLMM和SAIGE的运算速度和内存使用量的比较 . 该团队用真实数据展示了fastGWA-GLMM极高的运算效率，远超同类二元性状关联分析方法，运算效率最高可达到传统方法的36倍。 WebJan 19, 2024 · Here we propose a fast and powerful linear mixed model-based approach, fastGWA-GE, to test for GEI effect and G + GxE joint effect. Our extensive simulations show that fastGWA-GE outperforms other existing GEI test methods by controlling genomic inflation better, providing larger power and running hundreds to thousands of times faster.
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WebNov 5, 2024 · fastGWA-GLMM在2百万样本中的运算速度和内存使用量。 西湖大学供图 11月4日，西湖大学生命科学学院教授杨剑团队在《自然—遗传学》发表题为《一款适用于生物样本库规模数据的广义线性混合模型关联分析工具》的论文。 the paper garden sacramentoWebNov 18, 2024 · 第三，fastGWA-GLMM不是使用协变量调整的基因型数据来计算每个变体的评分测试统计量，而是首先使用未调整（但以均值为中心）的基因型数据来计算近似评分测试统计量，然后重新计算精确测试使用协变量调整的基因型数据对 χ2 检验统计量≥4 的变 … shuttle bus orlando theme parksWebThere are three data sets available in this data portal, as highlighted in the top right corner of the figure above. 1) Imputed: GWAS summary statistics for 2,173 traits from fastGWA analysis of the UKB imputed data. About 8 million SNPs with MAF > 0.01 are available. … the paper gatorWebWe developed two resource-efficient tools, fastGWA and fastGWA-GLMM, for mixed model-based genome-wide association analysis in large-scale data (Jiang et al. 2024 and 2024 Nat Genet). We first applied fastGWA to 2,173 traits on 456,422 array-genotyped … the paper garden sacramento caWebFixed a bug related to the convergence of fastGWA-REML in some rare scenarios. Version 1.92.3beta2 (12 Aug 2024) Fixed a bug in --maf. The bug only occurred in rare scenarios with specific numbers of variants. Version 1.92.3beta (9 Aug 2024) Updated the fastGWA module with fastGWA-REML as the default method for variance component the paper garden bookWebJul 6, 2024 · I am trying to run a --fastGWA-mlm-binary for a dataset of 292 individuals and 48026 SNPs. I don`t have a pedigree so I am running the lines: gcta64 --bfile geno --make-grm --thread-num 10 --out geno_grm gcta64 --grm geno_grm --make-bK-sparse 0.05 --out sp_grm to create the sparse GRM, which is running perfectly and saving GRM sparse … shuttle bus melbourne airport to ballaratWebDec 15, 2024 · Here, leveraging efficient sparse matrix-based algorithms, we developed a GLMM-based GWA tool (called fastGWA-GLMM) that is orders of magnitude faster than the state-of-the-art tool (e.g., ~37 ... the paper girl of paris summary